Sequence
atgc intronic sequence ATGC exonic sequencegtaagcaaatttgtccatttttgtgaacttattacacaacaaagtttcagtccaggatatctataattttaaaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGATACATATCTCCTTATTTTATTACTGATCAGAAGACCCGGA
Basic information
species | Glycine max |
transcript | GLYMA08G20560.1 |
intron # | 5 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G20560.2 (Glycine max), 3'ss of exon 4
lower sequence: LOC_Os05g46290.1 (Oryza sativa), 3'ss of exon 5
----------------------gtaagcaaatttgtccatttttgtgaacttattacacaacaaagtttcagtccaggatatctataatttta--aaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGATACATATCTCCTTATTTTATTACTGATCAGAAGACCCGGA
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gtgagtaccaagtgctgcttttattattagcctcatactgcagaatcattctatttggtaatacctactta-cctaggctgcaacttattttgggaaattggcagGATGGCAAGACATTAGACAATGAGCTTGAAGCGGTACAGGGAATGAAACTTTCCAGAGGCTACATATCTCCTTACTTTGTGACTGATCAGAAGACTCAGA
upper sequence: GLYMA08G20560.2 (Glycine max), 3'ss of exon 4
lower sequence: GRMZM2G074790_T03 (Zea mays), 3'ss of exon 5
-------gtaagcaaatttgtccatttttgtgaacttattacacaacaaagtttcagtccaggatatctataattttaaaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGATACATATCTCCTTATTTTATTACTGATCAGAAGACCCGGA
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gtgagtgttgagtgttcctttttgctgttagggtctttctgtatagtcaatttactgtactaca-acttacccttcggaaattggcagGATGGCAAAACATTGGACAATGAGCTTGAAGCAGTACAGGGAATGAAGCTGTCCAGAGGATACATATCTCCTTACTTTGTGACTGATCAAAAGACTCAGA
upper sequence: GLYMA08G20560.2 (Glycine max), 3'ss of exon 4
lower sequence: AT3G13860.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaagcaaatttgtccatttttgtgaact-tattacacaacaaagtttcagtccaggatatctataatt-ttaaaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGATACATATCTCCTTATTTTATTACTGATCAGAAGACCCGGA
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gtaagcttacttttc--ttttcatgccttataatagatcacttgatggttgtctgatcgctgtgttattcttcaaatacccagGATGGTAACACTTTAGATAACGAGCTGGAAGTAGTGGAAGGAATGAAGCTAGCCAGAGGTTACATTTCTCCTTATTTTATCACGGATGAGAAGACCCAGA
upper sequence: GLYMA08G20560.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv09s0002g02240.t01 (Vitis vinifera), 3'ss of exon 5
-------------gtaagcaaatttgtccattt-ttgtgaacttattacacaacaaagtttcagtccaggatatctataattttaaaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGATACATATCTCCTTATTTTATTACTGATCAGAAGACCCGGA
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gtgagtaacactcactaacttatcttctgatatattatgatcaataggcttaacacaagtt-gatatggtttatggatacttgcaaaacatccagGATGGAAATACTTTGGACAGTGAGTTAGAAGTGGTGGAAGGAATGAAGCTAGCGAGAGGCTATATATCTCCTTATTTTGTTACTGACCACAAGACCCAGAMapped EST sequences
Showing partial alignments of ESTs and genomic sequences. See full alignments
ATGC EST sequence
ATGC genomic sequence (exon)
ATGC genomic sequence (truncated intron)
EST:
gi|151400343|gb|EV270157.1|EV270157EST: TGGCTAGGGCAATGGAGAAAGTTGGGAAGGAAGGAGTCATTACTGTTGTT GATGGGAACACTTTGGATAATGAATTGGAAGTGGTAG
genomic: TGGCTAGGGCAATGGAGAAAGTTGGGAAGGAAGGAGTCATTACTGTTGTTgtaagcaaat ... aaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAG
atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttattacacaacaaagtttcagtccaggatatctataattttaaaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGATACATATCTCCTTATTTTATTACTGATCAGAAGACCCGGA
ctttc CT-rich tract
atatctataattttaa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagcaaatttgtccatttttgtgaacttattacacaacaaagtttcagtccaggatatctataattttaaaactttcagGATGGGAACACTTTGGATAATGAATTGGAAGTGGTAGAAGGAATGAAGTTAACCAGAGGATACATATCTCCTTATTTTATTACTGATCAGAAGACCCGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT